| Previous changeset 41:af4da561893b (2014-02-26) Next changeset 43:d1330f50deb9 (2014-02-27) |
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Commit message:
Uploaded v0.1.0 preview 5, test extra column output |
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modified:
test-data/four_human_proteins_taxid.fasta.pin tools/ncbi_blast_plus/README.rst tools/ncbi_blast_plus/ncbi_blastx_wrapper.xml |
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| diff -r af4da561893b -r fa7be13bcba9 test-data/four_human_proteins_taxid.fasta.pin |
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| Binary file test-data/four_human_proteins_taxid.fasta.pin has changed |
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| diff -r af4da561893b -r fa7be13bcba9 tools/ncbi_blast_plus/README.rst --- a/tools/ncbi_blast_plus/README.rst Wed Feb 26 13:26:14 2014 -0500 +++ b/tools/ncbi_blast_plus/README.rst Thu Feb 27 06:41:09 2014 -0500 |
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| @@ -159,7 +159,7 @@ - Now depends on package_blast_plus_2_2_28 in ToolShed. - Extended tabular output includes 'salltitles' as column 25. v0.1.00 - Now depends on package_blast_plus_2_2_29 in ToolShed. - - Tablar output now includes option to pick specific columns, + - Tabular output now includes option to pick specific columns, including previously unavailable taxonomy columns. - BLAST XML to tabular tool supports multiple input files. - More detailed descriptions for BLASTN and BLASTP task option. |
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| diff -r af4da561893b -r fa7be13bcba9 tools/ncbi_blast_plus/ncbi_blastx_wrapper.xml --- a/tools/ncbi_blast_plus/ncbi_blastx_wrapper.xml Wed Feb 26 13:26:14 2014 -0500 +++ b/tools/ncbi_blast_plus/ncbi_blastx_wrapper.xml Thu Feb 27 06:41:09 2014 -0500 |
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| @@ -83,6 +83,21 @@ <param name="adv_opts_selector" value="basic" /> <output name="output1" file="blastx_rhodopsin_vs_four_human_ext.tabular" ftype="tabular" /> </test> + <test> + <param name="query" value="rhodopsin_nucs.fasta" ftype="fasta" /> + <param name="db_opts_selector" value="file" /> + <param name="subject" value="four_human_proteins.fasta" ftype="fasta" /> + <param name="database" value="" /> + <param name="evalue_cutoff" value="1e-10" /> + <param name="out_format" value="cols" /> + <param name="std_cols" value="qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,sstart,send,evalue,bitscore" /> + <param name="ext_cols" value="sallseqid,score,nident,positive,gaps,ppos,qframe,sframe,qseq,sseq,qlen,slen,salltitles" /> + <param name="ids_cols" value="qgi,qacc,qaccver,sallseqid,sgi,sallgi,sacc,saccver,sallacc,stitle" /> + <param name="misc_cols" value="sstrand,frames,btop,qcovs,qcovhsp" /> + <param name="tax_cols" value="staxids,sscinames,scomnames,sblastnames,sskingdoms" /> + <param name="adv_opts_selector" value="basic" /> + <output name="output1" file="blastx_rhodopsin_vs_four_human_all.tabular" ftype="tabular" /> + </test> </tests> <help> |